Bloom filter paired end aligner stuff
Messing with Bloom aligner, added seed popularity histogram to index build
Merge branch 'MAPQ-matei' of https://github.com/amplab/snap into MAPQ-matei
Intersecting paired end aligner
Merge branch 'MAPQ-matei' of https://github.com/amplab/snap into MAPQ-matei
Soft exit & more work on intersecting aligner
Fix bug in BaseAligner that merged locatons that were not close enough to one another